Mr.Vc: a database of microarray and RNA-seq of Vibrio cholerae
Mr.Vc: a database of microarray and RNA-seq of Vibrio cholerae
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Mr.Vc：霍乱弧菌微阵列和RNA-seq数据库
DOI：
10.1093/database/baz069
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发表时间：
2019-06-24
影响因子：
5.8
通讯作者：
Liu, Zhi
中科院分区：
文献类型：
--
作者：
Zhang, Zhiyuan;Chen, Guozhong;Liu, Zhi
革兰氏阴性细菌霍乱弧菌是霍乱的病原体，霍乱是一种危及生命的腹泻病。在其感染周期中，霍乱弧菌经常在水生环境和宿主胃肠道之间切换生态位，其中霍乱弧菌相应地调节其转录组模式以更好地生存和增殖。霍乱弧菌转录组的综合资源将有助于霍乱研究，包括预防、诊断和干预策略。在本研究中，我们构建了霍乱弧菌（Mr.Vc）的微阵列和RNA-seq数据库，包含来自不同来源的霍乱弧菌145个实验条件的基因转录表达数据，涵盖25 937条差异表达基因。此外，我们还收集了相关信息，包括基因注释、它们可能所属的操纵子以及它们的蛋白质产物可能的相互作用伙伴。通过Mr.Vc，用户可以轻松找到自己感兴趣的转录组数据，例如感兴趣基因差异表达的实验条件，或者实验条件下所有差异表达的基因。我们相信，Mr.Vc 数据库是一个专门针对霍乱弧菌的综合数据存储库，可以成为相关领域所有研究人员的有用资源。 Mr.Vc可在http://bioinfo.life.hust.edu.cn/mrvc免费获取。
Gram-negative bacterium Vibrio cholerae is the causative agent of cholera, a life-threatening diarrheal disease. During its infectious cycle, V. cholerae routinely switches niches between aquatic environment and host gastrointestinal tract, in which V. cholerae modulates its transcriptome pattern accordingly for better survival and proliferation. A comprehensive resource for V. cholerae transcriptome will be helpful for cholera research, including prevention, diagnosis and intervention strategies. In this study, we constructed a microarray and RNA-seq database of V. cholerae (Mr.Vc), containing gene transcriptional expression data of 145 experimental conditions of V. cholerae from various sources, covering 25 937 entries of differentially expressed genes. In addition, we collected relevant information including gene annotation, operons they may belong to and possible interaction partners of their protein products. With Mr.Vc, users can easily find transcriptome data they are interested in, such as the experimental conditions in which a gene of interest was differentially expressed in, or all genes that were differentially expressed in an experimental condition. We believe that Mr.Vc database is a comprehensive data repository dedicated to V. cholerae and could be a useful resource for all researchers in related fields. Mr.Vc is available for free at http://bioinfo.life.hust.edu.cn/mrvc.